HsaINT1028436 @ hg38
Intron Retention
Gene
ENSG00000073756 | PTGS2
Description
prostaglandin-endoperoxide synthase 2 [Source:HGNC Symbol;Acc:HGNC:9605]
Coordinates
chr1:186676467-186676916:-
Coord C1 exon
chr1:186676833-186676916
Coord A exon
chr1:186676714-186676832
Coord C2 exon
chr1:186676467-186676713
Length
119 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
TTATTTATTTATTTTTTTAGATA
3' ss Score
9.79
Exon sequences
Seq C1 exon
GTGGACTTAAATCATATTTACGGTGAAACTCTGGCTAGACAGCGTAAACTGCGCCTTTTCAAGGATGGAAAAATGAAATATCAG
Seq A exon
GTATGCTTCCTTTGACTATTAAGACTTAGTTATTACCGCTTATACCCATATTTTAAAATCCCTAAAAATGTGTTCCTTAACTTTTTAACTGATGTTTATTTATTTATTTATTTTTTTAG
Seq C2 exon
ATAATTGATGGAGAGATGTATCCTCCCACAGTCAAAGATACTCAGGCAGAGATGATCTACCCTCCTCAAGTCCCTGAGCATCTACGGTTTGCTGTGGGGCAGGAGGTCTTTGGTCTGGTGCCTGGTCTGATGATGTATGCCACAATCTGGCTGCGGGAACACAACAGAGTATGCGATGTGCTTAAACAGGAGCATCCTGAATGGGGTGATGAGCAGTTGTTCCAGACAAGCAGGCTAATACTGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000073756:ENST00000367468:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0309810=An_peroxidase=FE(6.1=100)
A:
NA
C2:
PF0309810=An_peroxidase=FE(18.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGTGAAACTCTGGCTAGACA
R:
GCTCCTGTTTAAGCACATCGC
Band lengths:
257-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains